RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16588
(341 letters)
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found
in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate to
multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal
targeting signals, the Tom70p co-receptor for
mitochondrial targeting signals, Ser/Thr phosphatase 5C
and the p110 subunit of O-GlcNAc transferase; three
copies of the repeat are present here.
Length = 100
Score = 55.1 bits (133), Expect = 8e-10
Identities = 24/101 (23%), Positives = 42/101 (41%), Gaps = 2/101 (1%)
Query: 188 ELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADVWYNISHVAIGISDTRLAIQCLH 247
E NL + YD + +E+AL L + + AD +YN++ + A++
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYE 58
Query: 248 LALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSP 288
AL +D + + NL + + G E A + A P
Sbjct: 59 KALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDP 99
Score = 54.3 bits (131), Expect = 1e-09
Identities = 24/94 (25%), Positives = 48/94 (51%)
Query: 123 LNLAKIFEGLNNMPMSVKYYKLILKRDATCMEAIACIGVNHFYNDQPEVALLFYRRLLQM 182
LNL ++ L + +++YY+ L+ D +A + ++ + E AL Y + L++
Sbjct: 4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL 63
Query: 183 GLYNAELFNNLALCCFYSQQYDMVVTCFERALSL 216
NA+ + NL L + +Y+ + +E+AL L
Sbjct: 64 DPDNAKAYYNLGLAYYKLGKYEEALEAYEKALEL 97
Score = 52.4 bits (126), Expect = 7e-09
Identities = 22/97 (22%), Positives = 47/97 (48%), Gaps = 2/97 (2%)
Query: 159 IGVNHFYNDQPEVALLFYRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFERALSLAL 218
+G ++ + AL +Y + L++ NA+ + NLA + +Y+ + +E+AL L
Sbjct: 6 LGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALE--L 63
Query: 219 NENAADVWYNISHVAIGISDTRLAIQCLHLALSIDSS 255
+ + A +YN+ + A++ AL +D +
Sbjct: 64 DPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 48.1 bits (115), Expect = 2e-07
Identities = 22/99 (22%), Positives = 42/99 (42%)
Query: 224 DVWYNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAA 283
+ N+ ++ + D A++ AL +D + + NLA + G E A + A
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKA 60
Query: 284 AASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHP 322
P + +YN + G +E+ +K+L+L P
Sbjct: 61 LELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDP 99
Score = 31.6 bits (72), Expect = 0.13
Identities = 18/77 (23%), Positives = 32/77 (41%)
Query: 261 NNLAVLEAREGHIERASTYLQAAAASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDL 320
NL L + G + A Y + A P + +YN A G +E+ +K+L+L
Sbjct: 4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL 63
Query: 321 HPGHSYSWDILRKLEQY 337
P ++ ++ L
Sbjct: 64 DPDNAKAYYNLGLAYYK 80
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 50.2 bits (118), Expect = 5e-07
Identities = 41/184 (22%), Positives = 72/184 (39%), Gaps = 5/184 (2%)
Query: 116 PFIQVSRLNLAKIFEGLNNMPMSVKYYKLILKRDATCMEAIACIGVN-HFYNDQPEVALL 174
P + + LNL + E L +++ + L D A A + + + E AL
Sbjct: 92 PNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALE 151
Query: 175 FYRRLLQMG---LYNAELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADVWYNISH 231
Y + L++ AE L +Y+ + E+AL L + + A+ N+
Sbjct: 152 LYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPD-DDAEALLNLGL 210
Query: 232 VAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSPYLY 291
+ + + A++ AL +D + + NLA+L G E A L+ A P LY
Sbjct: 211 LYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPDLY 270
Query: 292 ETHY 295
Sbjct: 271 NLGL 274
Score = 44.8 bits (104), Expect = 3e-05
Identities = 39/192 (20%), Positives = 69/192 (35%), Gaps = 6/192 (3%)
Query: 141 YYKLILKRDATCMEAIACIGVNHFYNDQPEVALLFYRRLLQM--GLYNAELFNNLALCCF 198
+ + K A + + + AL L++ A L LAL
Sbjct: 11 LLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGLLLLLALALL 70
Query: 199 YSQQYDMVVTCFERALSLALNENAADVWYNISHVAIGISDTRLAIQCLHLALSIDSSHGL 258
+ + + E+AL L L N A+ N+ + + A++ L AL++D L
Sbjct: 71 KLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDL 130
Query: 259 SQNNLA-VLEAREGHIERASTYLQAAAASSPYLYE---THYNQAVISNLAGDLQESYNIV 314
++ LA G E A + A P L E + G +E+ ++
Sbjct: 131 AEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELL 190
Query: 315 KKSLDLHPGHSY 326
+K+L L+P
Sbjct: 191 EKALKLNPDDDA 202
>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
PilW. Members of this family are designated PilF in ref
(PMID:8973346) and PilW in ref (PMID:15612916). This
outer membrane protein is required both for pilus
stability and for pilus function such as adherence to
human cells. Members of this family contain copies of
the TPR (tetratricopeptide repeat) domain.
Length = 234
Score = 46.2 bits (110), Expect = 7e-06
Identities = 35/145 (24%), Positives = 55/145 (37%)
Query: 168 QPEVALLFYRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADVWY 227
+ E A +RR L + N ++ NN +Y+ + FE+A+ L A
Sbjct: 80 ELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLE 139
Query: 228 NISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASS 287
N A+ D A + L AL ID S LA L G + A YL+ +
Sbjct: 140 NAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQTY 199
Query: 288 PYLYETHYNQAVISNLAGDLQESYN 312
E+ + I+ GD+ +
Sbjct: 200 NQTAESLWLGIRIARALGDVAAAQR 224
Score = 28.5 bits (64), Expect = 4.4
Identities = 15/59 (25%), Positives = 25/59 (42%)
Query: 238 DTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSPYLYETHYN 296
D +A + L AL D L+ LA+ + G +E+A + A +P + N
Sbjct: 46 DLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNN 104
Score = 27.7 bits (62), Expect = 7.7
Identities = 19/114 (16%), Positives = 44/114 (38%), Gaps = 2/114 (1%)
Query: 216 LALNENAADVWYNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIER 275
L + + + ++ + + A AL+++ ++G NN ++G E+
Sbjct: 58 LEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQ 117
Query: 276 ASTYLQAAAASSPY--LYETHYNQAVISNLAGDLQESYNIVKKSLDLHPGHSYS 327
A + A Y + N + + AGD ++ + ++L + P S
Sbjct: 118 AMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPES 171
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 40.8 bits (96), Expect = 5e-05
Identities = 21/69 (30%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 186 NAELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADVWYNISHVAIGI-SDTRLAIQ 244
NAE NL F YD + +E+A L L+ + A+ +YN++ + + D A++
Sbjct: 2 NAEALKNLGNALFKLGDYDEAIEAYEKA--LELDPDNAEAYYNLALAYLKLGKDYEEALE 59
Query: 245 CLHLALSID 253
L AL +D
Sbjct: 60 DLEKALELD 68
Score = 35.8 bits (83), Expect = 0.003
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 160 GVNHFYNDQPEVALLFYRRLLQMGLYNAELFNNLALCCFYS-QQYDMVVTCFERALSLA 217
G F + A+ Y + L++ NAE + NLAL + Y+ + E+AL L
Sbjct: 10 GNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKALELD 68
Score = 29.2 bits (66), Expect = 0.46
Identities = 16/69 (23%), Positives = 26/69 (37%), Gaps = 1/69 (1%)
Query: 221 NAADVWYNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLA-VLEAREGHIERASTY 279
+ A+ N+ + + D AI+ AL +D + + NLA E A
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 280 LQAAAASSP 288
L+ A P
Sbjct: 61 LEKALELDP 69
Score = 27.7 bits (62), Expect = 1.9
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 1/64 (1%)
Query: 260 QNNLAVLEAREGHIERASTYLQAAAASSPYLYETHYNQAVIS-NLAGDLQESYNIVKKSL 318
NL + G + A + A P E +YN A+ L D +E+ ++K+L
Sbjct: 6 LKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKAL 65
Query: 319 DLHP 322
+L P
Sbjct: 66 ELDP 69
>gnl|CDD|233924 TIGR02552, LcrH_SycD, type III secretion low calcium response
chaperone LcrH/SycD. Genes in this family are found in
type III secretion operons. LcrH, from Yersinia is
believed to have a regulatory function in the
low-calcium response of the secretion system. The same
protein is also known as SycD (SYC = Specific Yop
Chaperone) for its chaperone role. In Pseudomonas, where
the homolog is known as PcrH, the chaperone role has
been demonstrated and the regulatory role appears to be
absent. ScyD/LcrH contains three central
tetratricopeptide-like repeats that are predicted to
fold into an all-alpha-helical array.
Length = 135
Score = 38.8 bits (91), Expect = 8e-04
Identities = 29/131 (22%), Positives = 59/131 (45%), Gaps = 6/131 (4%)
Query: 142 YKLILKRDATCMEAIACIGVNHFYNDQPEVALLFYRRLLQMGLYNAELFNNLALCCFYSQ 201
K +L D+ +E I + N + + + AL ++ L YN+ + LA CC +
Sbjct: 6 LKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLK 65
Query: 202 QYDMVVTCFERALSLALNENAADVWYNISHVAIGISDTRLAIQCLHLALSI---DSSHG- 257
+Y+ + + A +L ++ +A+G + A++ L LA+ I + +
Sbjct: 66 EYEEAIDAYALAAALDPDDPRPYFHAAECLLALG--EPESALKALDLAIEICGENPEYSE 123
Query: 258 LSQNNLAVLEA 268
L + A+LE+
Sbjct: 124 LKERAEAMLES 134
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 33.9 bits (79), Expect = 0.005
Identities = 9/30 (30%), Positives = 14/30 (46%)
Query: 187 AELFNNLALCCFYSQQYDMVVTCFERALSL 216
A+ NL +YD + +E+AL L
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALEL 30
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 38.5 bits (90), Expect = 0.005
Identities = 46/224 (20%), Positives = 78/224 (34%), Gaps = 25/224 (11%)
Query: 111 SQPDGPFIQVSRLNLAKIFEGLNNMPMSVKYYKLILKRDATCMEAIACIGVNHFYNDQ-- 168
+PD + NLA+I N +++ ++ +L D + AI + + Y
Sbjct: 494 IEPDFFP---AAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAI--LALAGLYLRTGN 548
Query: 169 PEVALLFYRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADVWYN 228
E A+ + + L E+ LAL +Y + + +LA+ AAD
Sbjct: 549 EEEAVAWLEKA--AELNPQEIEPALALAQYYLGKGQL-------KKALAILNEAAD-AAP 598
Query: 229 ISHVAIGI--------SDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYL 280
S A + D A+ L++ L+ LA A + +A T L
Sbjct: 599 DSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSL 658
Query: 281 QAAAASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHPGH 324
+ A P E A + A + + I K HP
Sbjct: 659 KRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKA 702
Score = 34.3 bits (79), Expect = 0.11
Identities = 27/150 (18%), Positives = 57/150 (38%), Gaps = 1/150 (0%)
Query: 176 YRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADVWYNISHVAIG 235
R+ L +G ++ LA ++ V+ L +E AA++ +G
Sbjct: 79 LRKALSLGYPKNQVLPLLARAYLLQGKFQQVLDELPGKTLLD-DEGAAELLALRGLAYLG 137
Query: 236 ISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSPYLYETHY 295
+ LA + AL+ID ++ LA L E + A + + P +
Sbjct: 138 LGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALL 197
Query: 296 NQAVISNLAGDLQESYNIVKKSLDLHPGHS 325
+ + G+++ + +K++ L P +
Sbjct: 198 LKGDLLLSLGNIELALAAYRKAIALRPNNI 227
Score = 33.5 bits (77), Expect = 0.15
Identities = 18/82 (21%), Positives = 36/82 (43%)
Query: 242 AIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSPYLYETHYNQAVIS 301
A + ALSI+ + NLA ++ +EG+ + A + P A +
Sbjct: 484 AREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLY 543
Query: 302 NLAGDLQESYNIVKKSLDLHPG 323
G+ +E+ ++K+ +L+P
Sbjct: 544 LRTGNEEEAVAWLEKAAELNPQ 565
Score = 30.4 bits (69), Expect = 1.4
Identities = 28/171 (16%), Positives = 64/171 (37%), Gaps = 2/171 (1%)
Query: 154 EAIACIGVNHFYNDQPEVALLFYRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFERA 213
E +A G+ + Q E+A Y + L + + LA ++D +
Sbjct: 126 ELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEV 185
Query: 214 LSLALNENAADVWYNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHI 273
L+ + D + + + + LA+ A+++ ++ LA + G
Sbjct: 186 LTA--DPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEF 243
Query: 274 ERASTYLQAAAASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHPGH 324
E A + A +P HY +A++ + +++ ++ +L P +
Sbjct: 244 EEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEY 294
Score = 28.1 bits (63), Expect = 8.7
Identities = 25/157 (15%), Positives = 56/157 (35%), Gaps = 2/157 (1%)
Query: 166 NDQPEVALLFYRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFERALSLALNENAADV 225
++ + A +L N + ++ + + +A+ AL N V
Sbjct: 172 ENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAI--ALRPNNIAV 229
Query: 226 WYNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAA 285
++ + I + A + L + L+ A+++ ++ + E A LQ A
Sbjct: 230 LLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALK 289
Query: 286 SSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHP 322
S+P G+L+++Y + + L P
Sbjct: 290 SAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAP 326
>gnl|CDD|197478 smart00028, TPR, Tetratricopeptide repeats. Repeats present in 4
or more copies in proteins. Contain a minimum of 34
amino acids each and self-associate via a "knobs and
holes" mechanism.
Length = 34
Score = 32.0 bits (74), Expect = 0.020
Identities = 10/31 (32%), Positives = 13/31 (41%)
Query: 187 AELFNNLALCCFYSQQYDMVVTCFERALSLA 217
AE NL YD + +E+AL L
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELD 31
Score = 25.1 bits (56), Expect = 7.9
Identities = 8/34 (23%), Positives = 18/34 (52%)
Query: 223 ADVWYNISHVAIGISDTRLAIQCLHLALSIDSSH 256
A+ YN+ + + + D A++ AL +D ++
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 33.5 bits (77), Expect = 0.020
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 5/77 (6%)
Query: 184 LYNAELFNNLALCCFYSQQYDMVVTCFERALSLA-----LNENAADVWYNISHVAIGISD 238
A NNLAL YD + E+AL LA + A N++ + + + D
Sbjct: 2 PDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGD 61
Query: 239 TRLAIQCLHLALSIDSS 255
A++ L AL++ +
Sbjct: 62 YDEALEYLEKALALREA 78
Score = 30.4 bits (69), Expect = 0.25
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 7/74 (9%)
Query: 219 NENAADVWYNISHVAIGISDTRLAIQCLHLALSIDSSHG-------LSQNNLAVLEAREG 271
+ + A N++ V + D A++ L AL + G + NNLA L G
Sbjct: 1 HPDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALG 60
Query: 272 HIERASTYLQAAAA 285
+ A YL+ A A
Sbjct: 61 DYDEALEYLEKALA 74
Score = 28.5 bits (64), Expect = 1.2
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 7/71 (9%)
Query: 259 SQNNLAVLEAREGHIERASTYLQAAAASSPYLYETHYNQAVI-SNLA------GDLQESY 311
+ NNLA++ R G + A L+ A + L E H A +NLA GD E+
Sbjct: 7 ALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEAL 66
Query: 312 NIVKKSLDLHP 322
++K+L L
Sbjct: 67 EYLEKALALRE 77
>gnl|CDD|237610 PRK14099, PRK14099, glycogen synthase; Provisional.
Length = 485
Score = 35.8 bits (83), Expect = 0.031
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 19 GIADSVLDTNTIATAARPGTSLKTAAVTAPALT 51
G+AD+V+D N +A A T ++ + VTA AL
Sbjct: 403 GLADTVVDANEMAIATGVATGVQFSPVTADALA 435
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 34.7 bits (80), Expect = 0.042
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 6/147 (4%)
Query: 168 QPEVALLFYRRLLQMGLYNAELFNNLA--LCCFYSQ-QYDMVVTCFERALSLALNENAAD 224
+ ++A YR+ L + N ++ NN LC +Q + + + FERAL+ +D
Sbjct: 84 ENDLADESYRKALSLAPNNGDVLNNYGAFLC---AQGRPEEAMQQFERALADPAYGEPSD 140
Query: 225 VWYNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAA 284
N+ A+ A + L AL +D + LA L + G A YL+
Sbjct: 141 TLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERYQ 200
Query: 285 ASSPYLYETHYNQAVISNLAGDLQESY 311
E+ I+ GD +
Sbjct: 201 QRGGAQAESLLLGIRIAKRLGDRAAAQ 227
Score = 29.7 bits (67), Expect = 2.1
Identities = 13/51 (25%), Positives = 21/51 (41%)
Query: 238 DTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSP 288
D A + L AL D S+ L+ A + G + A + A + +P
Sbjct: 50 DYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP 100
>gnl|CDD|191825 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry
includes outlying Tetratricopeptide-like repeats (TPR)
that are not matched by pfam00515.
Length = 34
Score = 30.6 bits (70), Expect = 0.082
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 187 AELFNNLALCCFYSQQYDMVVTCFERALSLA 217
AE NL L + Y+ + +E+AL L
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELD 31
>gnl|CDD|237080 PRK12370, PRK12370, invasion protein regulator; Provisional.
Length = 553
Score = 34.1 bits (78), Expect = 0.12
Identities = 20/98 (20%), Positives = 38/98 (38%), Gaps = 4/98 (4%)
Query: 229 ISHVAIGISDTRLAI----QCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAA 284
+S +GI D + A+ + A +D ++ + L ++ S + A
Sbjct: 306 LSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQAN 365
Query: 285 ASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHP 322
SP + Y +AG L+E+ + + L L P
Sbjct: 366 LLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLDP 403
>gnl|CDD|184285 PRK13733, PRK13733, conjugal transfer protein TraV; Provisional.
Length = 171
Score = 32.1 bits (73), Expect = 0.21
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 1/56 (1%)
Query: 40 LKTAAVTAPALT-SRPRTESGRPVSGVVRPGTLASRGGTLEQSLKTPRTAKSARPL 94
K AA + P L RT + V+ G+ + T EQ L PR +A
Sbjct: 55 AKPAAASLPRLAEGNFRTMPVQTVTATTPSGSRPAVTATPEQKLLAPRPLFTAARE 110
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 33.4 bits (76), Expect = 0.23
Identities = 27/94 (28%), Positives = 32/94 (34%), Gaps = 7/94 (7%)
Query: 27 TNTIATAARPGTSL---KTAAVTAPALTSRPRTESGRPVSGVVRPGTLASRGGTLEQSLK 83
+ AA P L +A TAP P P+ G V PG R
Sbjct: 2815 AAALPPAASPAGPLPPPTSAQPTAPPPPPGP-PPPSLPLGGSVAPGGDVRRRPPSRSPAA 2873
Query: 84 TPRTAKSARPLTSQAAR-TIRLGTASMLSQPDGP 116
P A ARP + AR + T S PD P
Sbjct: 2874 KP--AAPARPPVRRLARPAVSRSTESFALPPDQP 2905
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 30.0 bits (68), Expect = 0.28
Identities = 15/63 (23%), Positives = 26/63 (41%)
Query: 227 YNISHVAIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAAS 286
++ A+ D A+ L AL+ + L R+G + A+ L+AA A+
Sbjct: 1 LALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAA 60
Query: 287 SPY 289
P
Sbjct: 61 DPD 63
Score = 29.2 bits (66), Expect = 0.42
Identities = 16/63 (25%), Positives = 23/63 (36%)
Query: 263 LAVLEAREGHIERASTYLQAAAASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHP 322
LA R G + A L+AA A P E G L E+ +++ +L P
Sbjct: 3 LARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAADP 62
Query: 323 GHS 325
Sbjct: 63 DDP 65
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 31.8 bits (73), Expect = 0.57
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 2/49 (4%)
Query: 274 ERASTYLQAAAASSPYLYETHYNQAVISNLAGDLQESYNIVKK--SLDL 320
++A Y+ A +P L E + +A I AGDLQ++ +++ SLDL
Sbjct: 210 DKALEYIDKAIEHTPTLVELYMTKARILKHAGDLQKAAEAMEEARSLDL 258
>gnl|CDD|130706 TIGR01645, half-pint, poly-U binding splicing factor, half-pint
family. The proteins represented by this model contain
three RNA recognition motifs (rrm: pfam00076) and have
been characterized as poly-pyrimidine tract binding
proteins associated with RNA splicing factors. In the
case of PUF60 (GP|6176532), in complex with p54, and in
the presence of U2AF, facilitates association of U2
snRNP with pre-mRNA.
Length = 612
Score = 31.6 bits (71), Expect = 0.64
Identities = 24/107 (22%), Positives = 35/107 (32%), Gaps = 3/107 (2%)
Query: 12 DLEAEEEGIADSVLDTNTIATAARPGTSLKTAAVTAPALTSRPRTESGRPVSGVVRPGTL 71
DL + + V + + A AAV A A T+ + + V+G G
Sbjct: 270 DLGGQYLRVGKCVTPPDALLQPATVSAIPAAAAVAAAAATA--KIMAAEAVAGAAVLGPR 327
Query: 72 ASRGGTLEQSLKTPRTAKS-ARPLTSQAARTIRLGTASMLSQPDGPF 117
A T SL T K+ +A L A+ GP
Sbjct: 328 AQSPATPSSSLPTDIGNKAVVSSAKKEAEEVPPLPQAAPAVVKPGPM 374
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 30.1 bits (67), Expect = 1.7
Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 1/86 (1%)
Query: 6 SQLSVDDLEAEEEGIADSVLDTNTIATAARPGTSLKTAAVTAPALTSRPRTESGRPVSGV 65
S S D +EA + +S+ D +PG ++ A T + + P SGV
Sbjct: 85 SSESGDTVEAVVPHMGESITDGTLATFLKKPGERVQADEAIAQIETDKVTIDIASPASGV 144
Query: 66 VRPGTLASRGGTLEQSLKTPRTAKSA 91
++ L G T+E K +KS
Sbjct: 145 IQE-FLVKEGDTVEPGTKVAIISKSE 169
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 26.7 bits (60), Expect = 2.0
Identities = 7/34 (20%), Positives = 16/34 (47%)
Query: 223 ADVWYNISHVAIGISDTRLAIQCLHLALSIDSSH 256
A +Y + + + + D A + AL +D ++
Sbjct: 1 ARAYYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
>gnl|CDD|233797 TIGR02243, TIGR02243, conserved hypothetical protein, phage
tail-like region. This family consists of a large,
conserved hypothetical protein in phage tail-like
regions of at least six bacterial genomes: Gloeobacter
violaceus PCC 7421, Geobacter sulfurreducens PCA,
Streptomyces coelicolor A3(2), Streptomyces avermitilis
MA-4680, Mesorhizobium loti, and Myxococcus xanthus. The
function is unknown [Mobile and extrachromosomal element
functions, Prophage functions].
Length = 656
Score = 29.8 bits (67), Expect = 2.1
Identities = 23/92 (25%), Positives = 30/92 (32%), Gaps = 5/92 (5%)
Query: 23 SVLDTNTIATAARPGTSLKTAAVTAPALTS-RPRTESGRPVSGVVRPGTLASRGGTLEQS 81
VL T ARPG +P + R T G G T++ G
Sbjct: 304 HVLATACRTLPARPGA---PFYTRSPRIARLRANTIGGTVTVGATHSETVSEEGLGSGAG 360
Query: 82 LKTPRTAKSARPLTSQAARTIRLGTASMLSQP 113
L R A P + AAR + L + L
Sbjct: 361 LPGQRFTLPASPALAGAAR-VALLVQADLGVE 391
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 29.7 bits (67), Expect = 2.3
Identities = 16/66 (24%), Positives = 23/66 (34%)
Query: 266 LEAREGHIERASTYLQAAAASSPYLYETHYNQAVISNLAGDLQESYNIVKKSLDLHPGHS 325
+ + A L+ A A P N A G QE+ I+ + L P
Sbjct: 349 ILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDP 408
Query: 326 YSWDIL 331
WD+L
Sbjct: 409 NGWDLL 414
>gnl|CDD|221851 pfam12916, DUF3834, Protein of unknown function (DUF3834). This
family is likely to be related to solute-binding
lipo-proteins.
Length = 199
Score = 28.9 bits (65), Expect = 3.1
Identities = 24/62 (38%), Positives = 33/62 (53%), Gaps = 7/62 (11%)
Query: 12 DLEAEEEGIADSVLDTNTIATAARPGTSLKTAAVTAPALTS-RPRTESGRPVSGVVRPGT 70
D+ +EG AD VLD+ T++ R L+ AVT L S P+ SG+ GV R G+
Sbjct: 23 DIIFSKEGNADVVLDS-TVSLVKR---GLRIDAVTIKKLYSIYPKIGSGK--IGVWRKGS 76
Query: 71 LA 72
A
Sbjct: 77 AA 78
>gnl|CDD|220721 pfam10373, EST1_DNA_bind, Est1 DNA/RNA binding domain. Est1 is a
protein which recruits or activates telomerase at the
site of polymerisation. This is the DNA/RNA binding
domain of EST1.
Length = 276
Score = 28.9 bits (65), Expect = 4.1
Identities = 24/104 (23%), Positives = 43/104 (41%), Gaps = 11/104 (10%)
Query: 242 AIQCLHLALSIDSSHGLSQNNLAVLEAREG-HIERASTYLQAAAASSPYLYETHYNQAVI 300
A++ LA + S G N L V+ G H++ YL++ A +P+
Sbjct: 1 ALRYYLLASLLLPSSGEPYNQLGVIALYVGNHLDAVYYYLRSLAVRNPF-------PTAK 53
Query: 301 SNLA---GDLQESYNIVKKSLDLHPGHSYSWDILRKLEQYFSYL 341
+NL ++ ++V + L D+L++L YF L
Sbjct: 54 NNLELLFEKIKFLADLVSQELLNKGKEESKSDLLKRLVIYFLRL 97
>gnl|CDD|182415 PRK10370, PRK10370, formate-dependent nitrite reductase complex
subunit NrfG; Provisional.
Length = 198
Score = 27.9 bits (62), Expect = 7.0
Identities = 24/70 (34%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 157 ACIGVNHFYNDQPEVALLFYRRLLQMGLYNAELFNNLALCCFYSQQYDMVVTCFE---RA 213
A +G + + + + ALL YR+ LQ+ NAEL+ LA +Y M E +A
Sbjct: 77 ALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKA 136
Query: 214 LSLALNENAA 223
L+L NE A
Sbjct: 137 LALDANEVTA 146
>gnl|CDD|236983 PRK11788, PRK11788, tetratricopeptide repeat protein; Provisional.
Length = 389
Score = 27.9 bits (63), Expect = 8.6
Identities = 17/79 (21%), Positives = 24/79 (30%), Gaps = 9/79 (11%)
Query: 233 AIGISDTRLAIQCLHLALSIDSSHGLSQNNLAVLEAREGHIERASTYLQAAAASSPYLYE 292
A+ D A L AL+ D + L L +G A L+ P
Sbjct: 190 ALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDP---- 245
Query: 293 THYNQAVISNLAGDLQESY 311
+S + L E Y
Sbjct: 246 -----EYLSEVLPKLMECY 259
>gnl|CDD|236368 PRK09058, PRK09058, coproporphyrinogen III oxidase; Provisional.
Length = 449
Score = 28.0 bits (63), Expect = 9.1
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 15/75 (20%)
Query: 274 ERASTYLQAAAASSPYLYETHYNQAVISNLAGDLQES--YNIVKKS----LDLHPG---- 323
ERA Y +L + + Q S+ A +E YN++ K L G
Sbjct: 277 ERADMYAYGVE----FLAKAGWRQLSNSHWARTTRERNLYNLLIKQGAECLPFGAGAGGS 332
Query: 324 -HSYSWDILRKLEQY 337
YS+ R L+ Y
Sbjct: 333 IGGYSYMNHRDLDTY 347
>gnl|CDD|223049 PHA03334, PHA03334, putative DNA polymerase catalytic subunit;
Provisional.
Length = 1545
Score = 27.9 bits (62), Expect = 10.0
Identities = 19/105 (18%), Positives = 35/105 (33%), Gaps = 10/105 (9%)
Query: 117 FIQVSRLNLAKIFEGLNNMPMSVKYYKLILKRDATCMEAIACIGVNHFYNDQPEVALLFY 176
+ + +F G + + + K + +A + +V L +
Sbjct: 95 TLPLPERGPITVFNGDTKEDVDCRLFLFGTKAER---KAFIKALRKVLPSLGADV--LTF 149
Query: 177 RRLLQMGLYNAE-LFNNLALCCFYSQQYDMVVTCFERALSLALNE 220
R + NA + N L CC+Y +Y R +AL E
Sbjct: 150 GRHVSNMDGNAPAILNRLMCCCYYRTKYK----VASRPDVIALTE 190
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.131 0.372
Gapped
Lambda K H
0.267 0.0867 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,759,447
Number of extensions: 1583406
Number of successful extensions: 1434
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1414
Number of HSP's successfully gapped: 61
Length of query: 341
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 243
Effective length of database: 6,590,910
Effective search space: 1601591130
Effective search space used: 1601591130
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (26.3 bits)